Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF
Lodging is a persistent problem which severely reduce yield and impair seed quality in rapeseed (Brassica napus L.). Enhancing stem strength (SS) has proven to be an effective approach to decrease lodging risk. In the present study, four interrelated stem lodging-related traits, including stem break...
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ftfrontimediafig:oai:figshare.com:article/6489641 2023-05-15T16:07:11+02:00 Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF Hongge Li Xi Cheng Liping Zhang Jihong Hu Fugui Zhang Biyun Chen Kun Xu Guizhen Gao Hao Li Lixia Li Qian Huang Zaiyun Li Guixin Yan Xiaoming Wu 2018-06-12T08:42:50Z https://doi.org/10.3389/fpls.2018.00796.s004 https://figshare.com/articles/Image_4_An_Integration_of_Genome-Wide_Association_Study_and_Gene_Co-expression_Network_Analysis_Identifies_Candidate_Genes_of_Stem_Lodging-Related_Traits_in_Brassica_napus_TIF/6489641 unknown doi:10.3389/fpls.2018.00796.s004 https://figshare.com/articles/Image_4_An_Integration_of_Genome-Wide_Association_Study_and_Gene_Co-expression_Network_Analysis_Identifies_Candidate_Genes_of_Stem_Lodging-Related_Traits_in_Brassica_napus_TIF/6489641 CC BY 4.0 CC-BY Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified Brassica napus L stem lodging-related traits genome-wide association study gene co-expression network candidate genes Image Figure 2018 ftfrontimediafig https://doi.org/10.3389/fpls.2018.00796.s004 2018-06-13T22:56:41Z Lodging is a persistent problem which severely reduce yield and impair seed quality in rapeseed (Brassica napus L.). Enhancing stem strength (SS) has proven to be an effective approach to decrease lodging risk. In the present study, four interrelated stem lodging-related traits, including stem breaking resistance (SBR), stem diameter (SD), SS, and lodging coefficient (LC), were investigated among 472 rapeseed accessions. A genome-wide association study (GWAS) using Brassica 60K SNP array for stem lodging-related traits identified 67 significantly associated quantitative trait loci (QTLs) and 71 candidate genes. In parallel, a gene co-expression network based on transcriptome sequencing was constructed. The module associated with cellulose biosynthesis was highlighted. By integrating GWAS and gene co-expression network analysis, some promising candidate genes, such as ESKIMO1 (ESK1, BnaC08g26920D), CELLULOSE SYNTHASE 6 (CESA6, BnaA09g06990D), and FRAGILE FIBER 8 (FRA8, BnaC04g39510D), were prioritized for further research. These findings revealed the genetic basis underlying stem lodging and provided worthwhile QTLs and genes information for genetic improvement of stem lodging resistance in B. napus. Still Image eskimo* Frontiers: Figshare |
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Frontiers: Figshare |
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ftfrontimediafig |
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unknown |
topic |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified Brassica napus L stem lodging-related traits genome-wide association study gene co-expression network candidate genes |
spellingShingle |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified Brassica napus L stem lodging-related traits genome-wide association study gene co-expression network candidate genes Hongge Li Xi Cheng Liping Zhang Jihong Hu Fugui Zhang Biyun Chen Kun Xu Guizhen Gao Hao Li Lixia Li Qian Huang Zaiyun Li Guixin Yan Xiaoming Wu Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF |
topic_facet |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified Brassica napus L stem lodging-related traits genome-wide association study gene co-expression network candidate genes |
description |
Lodging is a persistent problem which severely reduce yield and impair seed quality in rapeseed (Brassica napus L.). Enhancing stem strength (SS) has proven to be an effective approach to decrease lodging risk. In the present study, four interrelated stem lodging-related traits, including stem breaking resistance (SBR), stem diameter (SD), SS, and lodging coefficient (LC), were investigated among 472 rapeseed accessions. A genome-wide association study (GWAS) using Brassica 60K SNP array for stem lodging-related traits identified 67 significantly associated quantitative trait loci (QTLs) and 71 candidate genes. In parallel, a gene co-expression network based on transcriptome sequencing was constructed. The module associated with cellulose biosynthesis was highlighted. By integrating GWAS and gene co-expression network analysis, some promising candidate genes, such as ESKIMO1 (ESK1, BnaC08g26920D), CELLULOSE SYNTHASE 6 (CESA6, BnaA09g06990D), and FRAGILE FIBER 8 (FRA8, BnaC04g39510D), were prioritized for further research. These findings revealed the genetic basis underlying stem lodging and provided worthwhile QTLs and genes information for genetic improvement of stem lodging resistance in B. napus. |
format |
Still Image |
author |
Hongge Li Xi Cheng Liping Zhang Jihong Hu Fugui Zhang Biyun Chen Kun Xu Guizhen Gao Hao Li Lixia Li Qian Huang Zaiyun Li Guixin Yan Xiaoming Wu |
author_facet |
Hongge Li Xi Cheng Liping Zhang Jihong Hu Fugui Zhang Biyun Chen Kun Xu Guizhen Gao Hao Li Lixia Li Qian Huang Zaiyun Li Guixin Yan Xiaoming Wu |
author_sort |
Hongge Li |
title |
Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF |
title_short |
Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF |
title_full |
Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF |
title_fullStr |
Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF |
title_full_unstemmed |
Image_4_An Integration of Genome-Wide Association Study and Gene Co-expression Network Analysis Identifies Candidate Genes of Stem Lodging-Related Traits in Brassica napus.TIF |
title_sort |
image_4_an integration of genome-wide association study and gene co-expression network analysis identifies candidate genes of stem lodging-related traits in brassica napus.tif |
publishDate |
2018 |
url |
https://doi.org/10.3389/fpls.2018.00796.s004 https://figshare.com/articles/Image_4_An_Integration_of_Genome-Wide_Association_Study_and_Gene_Co-expression_Network_Analysis_Identifies_Candidate_Genes_of_Stem_Lodging-Related_Traits_in_Brassica_napus_TIF/6489641 |
genre |
eskimo* |
genre_facet |
eskimo* |
op_relation |
doi:10.3389/fpls.2018.00796.s004 https://figshare.com/articles/Image_4_An_Integration_of_Genome-Wide_Association_Study_and_Gene_Co-expression_Network_Analysis_Identifies_Candidate_Genes_of_Stem_Lodging-Related_Traits_in_Brassica_napus_TIF/6489641 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fpls.2018.00796.s004 |
_version_ |
1766403244005785600 |